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Q&A and discussion forum for
PiGx:
genomics analysis pipelines.
Please mention the pipeline name in the subject line and try to provide reproducible and detailed messages for your issues or questions.
http://bioinformatics.mdc-
berlin.de/pigx
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Robert Allen
7/25/23
Partnership Requsted
Greetings! I hope you're doing well. I would like to take this opportunity to propose a mutually
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Partnership Requsted
Greetings! I hope you're doing well. I would like to take this opportunity to propose a mutually
7/25/23
Karam Ibrahim
4/26/23
pigx-rnaseq error in trim_qc_reads_pe
dear maintainer of pigx-RNAseq pipeline I'm a PhD student at AG_Ohler and I tried to run the
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pigx-rnaseq error in trim_qc_reads_pe
dear maintainer of pigx-RNAseq pipeline I'm a PhD student at AG_Ohler and I tried to run the
4/26/23
Rebeca.Pac...@mdc-berlin.de
, …
Alexander Blume
5
2/20/23
Max Cluster RNAseq trouble
Dear Rebecca, When inspecting the contents of my ~/.guix-profile/etc/profile it says: ``` # Source
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Max Cluster RNAseq trouble
Dear Rebecca, When inspecting the contents of my ~/.guix-profile/etc/profile it says: ``` # Source
2/20/23
xiaoqing xu
, …
Xiaoqing Xu
4
12/27/22
sars-cov-2
Thanks for your prompt reply. I had this question using the newly built file, so I used the setting
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sars-cov-2
Thanks for your prompt reply. I had this question using the newly built file, so I used the setting
12/27/22
Bunina, Daria
, …
Ricardo Wurmus
8
11/24/22
RNAseq pipeline not running jobs: Max cluster settings files issue
Hi Daria, > Ricardo to your points: the guix package -l gives me this: > > Generation 1 Feb
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RNAseq pipeline not running jobs: Max cluster settings files issue
Hi Daria, > Ricardo to your points: the guix package -l gives me this: > > Generation 1 Feb
11/24/22
Elizavet...@mdc-berlin.de
, …
Alexander Blume
24
10/13/22
PIGx ChIP-seq pipeline error
Thank you, the problem was indeed related to the required memory. Best, Lisa От: Alexander Blume <
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PIGx ChIP-seq pipeline error
Thank you, the problem was indeed related to the required memory. Best, Lisa От: Alexander Blume <
10/13/22
Elizavet...@mdc-berlin.de
,
Bora Uyar
17
10/12/22
PIGx RNA-seq HISAT2 error
yes, of course, thank you! От: Bora Uyar <borauy...@gmail.com> Отправлено: 12 октября 2022 г
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PIGx RNA-seq HISAT2 error
yes, of course, thank you! От: Bora Uyar <borauy...@gmail.com> Отправлено: 12 октября 2022 г
10/12/22
mekyaqqq
4/20/22
紧缺人才 :健康管理师 | 公共营養师 | 心理咨询師
緊缺人才 :健康管理师 | 公共营养師 | 心理咨询師 4tm b8bj 【健康管理师】 bggqpwf2 證书及行业优势:bxnui * 人才需求大:我国至少需要健康管理的人员将超200萬人
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紧缺人才 :健康管理师 | 公共营養师 | 心理咨询師
緊缺人才 :健康管理师 | 公共营养師 | 心理咨询師 4tm b8bj 【健康管理师】 bggqpwf2 證书及行业优势:bxnui * 人才需求大:我国至少需要健康管理的人员将超200萬人
4/20/22
Battenfeld, Thomas
3/7/22
SARS-CoV-2 workflow comparison - kindly check if you work is represented correctly
Dear PiGx Team, I am from the University Hospital Essen, Germany, and we work extensively with SARS-
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SARS-CoV-2 workflow comparison - kindly check if you work is represented correctly
Dear PiGx Team, I am from the University Hospital Essen, Germany, and we work extensively with SARS-
3/7/22
Jessica Nowasell
3/7/22
Aw:
Antwort
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Aw:
Antwort
3/7/22
august_che448
3/2/22
从技术走向管理、成功的产品经理(其他研发相关课程请见附件)
pigx bd659372-d4a0-43d6-93e c992d06d-fd8f-4a4c-8c01硲橏螇拋84f75943-2fe7-44d1-85d634f3114c-3dc8-4552棈烊櫪
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从技术走向管理、成功的产品经理(其他研发相关课程请见附件)
pigx bd659372-d4a0-43d6-93e c992d06d-fd8f-4a4c-8c01硲橏螇拋84f75943-2fe7-44d1-85d634f3114c-3dc8-4552棈烊櫪
3/2/22
jasper_juan979
1/11/22
Fw:五星服务
09710f5c-8427-4bd3-b7fd-8aed08546d26 c26d3792-5f9f-4ba2-a312-2435fe5037bc ed910a4d-78ca-416d-87b7-
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Fw:五星服务
09710f5c-8427-4bd3-b7fd-8aed08546d26 c26d3792-5f9f-4ba2-a312-2435fe5037bc ed910a4d-78ca-416d-87b7-
1/11/22
Kremsky, Isaac
12/23/21
Using PIGx starting from VCF files
Hi, I am working with SARS-Cov2 data from wastewater samples and would like to use your pipeline on
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Using PIGx starting from VCF files
Hi, I am working with SARS-Cov2 data from wastewater samples and would like to use your pipeline on
12/23/21
C. Tuñí i Domínguez
, …
Ricardo Wurmus
8
12/8/21
Problem when installing pigx-sars-cov2-ww
Charles Foster <charles...@gmail.com> writes: > Thanks - the package is now installing.
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Problem when installing pigx-sars-cov2-ww
Charles Foster <charles...@gmail.com> writes: > Thanks - the package is now installing.
12/8/21
phqv
,
mc
2
11/8/21
pigx@googlegroups.com
lbg9 b6d05cf xlvwbzge8353f63114.155.141.244ynzwoptbuフずエヤえヌばc7ut 0ikpmugcなヾちチカモ4f35881.82.214.18637d
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pigx@googlegroups.com
lbg9 b6d05cf xlvwbzge8353f63114.155.141.244ynzwoptbuフずエヤえヌばc7ut 0ikpmugcなヾちチカモ4f35881.82.214.18637d
11/8/21
dion
11/3/21
《公众演讲与表达技巧》(如需内-训,请添加微信:159 0184 5091)
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《公众演讲与表达技巧》(如需内-训,请添加微信:159 0184 5091)
11/3/21
Pia.Raut...@mdc-berlin.de
, …
Alexander Blume
16
9/22/21
PiGX ChIP-seq question
Hi Pia, You might want to check the 'Analysis/Summarized_Data_For_Report.RDS' file, as this
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PiGX ChIP-seq question
Hi Pia, You might want to check the 'Analysis/Summarized_Data_For_Report.RDS' file, as this
9/22/21
lara
9/21/21
敏捷软件开发(可.定 .制 .内. 训)
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敏捷软件开发(可.定 .制 .内. 训)
9/21/21
Somesh
, …
Ricardo Wurmus
7
9/13/21
pigx-scrnaseq [AttributeError - 'NoneType' object has no attribute 'items']
Hi Gianni, > I used the provided setting and sample sheet (see attached). You will at least need
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pigx-scrnaseq [AttributeError - 'NoneType' object has no attribute 'items']
Hi Gianni, > I used the provided setting and sample sheet (see attached). You will at least need
9/13/21
Miss Thelma
9/10/21
-- Hi, Hope you are well. There's something confidential I want to discuss with you. Please
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-- Hi, Hope you are well. There's something confidential I want to discuss with you. Please
9/10/21
Somesh Sai
2
8/9/21
Unable to run pigx rnaseq pipeline
You can download the files from here -https://mdcsft.mdc-berlin.de/download.php/4063688551/pigx-
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Unable to run pigx rnaseq pipeline
You can download the files from here -https://mdcsft.mdc-berlin.de/download.php/4063688551/pigx-
8/9/21
Liene....@mdc-berlin.de
,
Alexander Blume
2
7/8/21
Unable to run ChIP-seq pipeline
Hi Liene, Thanks for giving the chipseq pipeline a try :) Sorry, the error that you got is not very
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Unable to run ChIP-seq pipeline
Hi Liene, Thanks for giving the chipseq pipeline a try :) Sorry, the error that you got is not very
7/8/21
Helen Foster
2
3/31/21
ROI -Machine Learning Software
Hi Hope you are doing well. I am waiting for your response for the previous email. Please fill the
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ROI -Machine Learning Software
Hi Hope you are doing well. I am waiting for your response for the previous email. Please fill the
3/31/21
Paulo Borges
,
alex....@gmail.com
3
2/2/21
Suggestion for additional section in the YAML
Hi Paulo, Thank you for your suggestion to improve the handling of different fastq file extensions,
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Suggestion for additional section in the YAML
Hi Paulo, Thank you for your suggestion to improve the handling of different fastq file extensions,
2/2/21
davis...@gmail.com
, …
Alexander Blume
11
12/15/20
limitGenomeGenerateRAM too small for genome
Hi Paulo, I was able to reproduce your first error and the reason why the command failed was probably
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limitGenomeGenerateRAM too small for genome
Hi Paulo, I was able to reproduce your first error and the reason why the command failed was probably
12/15/20
lesh...@hotmail.com
12/12/20
7496912610
nqgetyc 用数据驱动人力资源效能提升(工具版) 【2021年01月06-07日 上海】【2021年01月14-15日 深圳】【6980元/人】 课 程 大 纲: 第一部分 人力资源管理究竟管什么?
unread,
7496912610
nqgetyc 用数据驱动人力资源效能提升(工具版) 【2021年01月06-07日 上海】【2021年01月14-15日 深圳】【6980元/人】 课 程 大 纲: 第一部分 人力资源管理究竟管什么?
12/12/20
ldvjryrvk
11/26/20
谋捣结尽霸坚抚斗背
xrdyj 016 バぎゥなネう "My birthday-present! Curse it! How did we lose it, my precious? Yes,
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谋捣结尽霸坚抚斗背
xrdyj 016 バぎゥなネう "My birthday-present! Curse it! How did we lose it, my precious? Yes,
11/26/20
cxnciy
11/24/20
wr
lxjhj 5930 めグェダべケらべ "Hullo!" said Beorn. "You came pretty quick-where were you hiding
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wr
lxjhj 5930 めグェダべケらべ "Hullo!" said Beorn. "You came pretty quick-where were you hiding
11/24/20
Ivano Legnini
7/1/20
bowtie2
Hi Ricardo, I managed to run pigx in the end, with decent results, although I now will play a bit
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bowtie2
Hi Ricardo, I managed to run pigx in the end, with decent results, although I now will play a bit
7/1/20
Alisa Fuchs
,
Ricardo Wurmus
3
5/28/20
guix package installation
Dear Ricardo, Thank you very much for your fast reply. I copied the channel file and now it works!
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guix package installation
Dear Ricardo, Thank you very much for your fast reply. I copied the channel file and now it works!
5/28/20